Genomic innovations linked to infection strategies across emerging pathogenic chytrid fungi

by Rhys A. Farrer, An Martel, Elin Verbrugghe, Amr Abouelleil, Richard Ducatelle, Joyce E. Longcore, Timothy Y. James, Frank Pasmans, Matthew C. Fisher, Christina A. Cuomo
Published 2017-03-01

The Origins and Future of Sentinel: An Early-Warning System for Pandemic Preemption and Response

by Yolanda Botti-Lodovico, Parvathy Nair, Dolo Nosamiefan, Matthew Stremlau, Stephen Schaffner, Sebastian V. Agignoae, John Oke Aiyepada, Fehintola V. Ajogbasile, George O. Akpede, Foday Alhasan, Kristian G. Andersen, Danny A. Asogun, Oladele Oluwafemi Ayodeji, Aida S. Badiane, Kayla Barnes, Matthew R. Bauer, Antoinette Bell-Kareem, Muoebonam Ekene Benard, Ebo Ohomoime Benevolence, Osiemi Blessing, Chloe K. Boehm, Matthew L. Boisen, Nell G. Bond, Luis M. Branco, Michael J. Butts, Amber Carter, Andres Colubri, Awa B. Deme, Katherine C. DeRuff, Younousse Diédhiou, Akhilomen Patience Edamhande, Siham Elhamoumi, Emily J. Engel, Philomena Eromon, Mosoka Fallah, Onikepe A. Folarin, Ben Fry, Robert Garry, Amy Gaye, Michael Gbakie, Sahr M. Gevao, Gabrielle Gionet, Adrianne Gladden-Young, Augustine Goba, Jules Francois Gomis, Anise N. Happi, Mary Houghton, Chikwe Ihekwuazu, Christopher Ojemiega Iruolagbe, Jonathan Jackson, Simbirie Jalloh, Jeremy Johnson, Lansana Kanneh, Adeyemi Kayode, Molly Kemball, Ojide Chiedozie Kingsley, Veronica Koroma, Dylan Kotliar, Samar Mehta, Hayden C. Metsky, Airende Michael, Marzieh Ezzaty Mirhashemi, Kayvon Modjarrad, Mambu Momoh, Cameron A. Myhrvold, Okonofua Grace Naregose, Tolla Ndiaye, Mouhamadou Ndiaye, Aliou Ndiaye, Erica Normandin, Ikponmwosa Odia, Judith Uche Oguzie, Sylvanus A. Okogbenin, Peter O. Okokhere, Johnson Okolie, Idowu B. Olawoye, Testimony J. Olumade, Paul E. Oluniyi, Omigie Omoregie, Daniel J. Park, Mariétou Faye Paye, Brittany Petros, Anthony A. Philippakis, Abechi Priscilla, Alan Ricks, Anne Rimoin, John Demby Sandi, John S. Schieffelin, Monica Schreiber, Mame Cheikh Seck, Sameed Siddiqui, Katherine Siddle, Allison R. Smither, Mouhamad Sy, Ngayo Sy, Christopher H. Tomkins-Tinch, Oyewale Tomori, Chinedu Ugwu, Jessica N. Uwanibe, Eghosasere Anthonia Uyigue, Dada Ireti Victoria, Anika Vinzé, Megan E. Vodzak, Nicole Welch, Haja Isatta Wurie, Daba Zoumarou, Donald S. Grant, Daouda Ndiaye, Bronwyn MacInnis, Pardis C. Sabeti, Christian Happi
Published 2021-08-01

A High-Content Screen Identifies TPP1 and Aurora B as Regulators of Axonal Mitochondrial Transport

by Evgeny Shlevkov, Himanish Basu, Mark-Anthony Bray, Zheng Sun, Wei Wei, Kaan Apaydin, Kyle Karhohs, Pin-Fang Chen, Janell L.M. Smith, Ole Wiskow, Kasper Roet, Xuan Huang, Kevin Eggan, Anne E. Carpenter, Robin J. Kleiman, Thomas L. Schwarz
Published 2019-09-01

Dissecting the human microbiome with single-cell genomics

by Andrew C. Tolonen, Ramnik J. Xavier
Published 2017-06-01

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

by Francesco Beghini, Lauren J McIver, Aitor Blanco-Míguez, Leonard Dubois, Francesco Asnicar, Sagun Maharjan, Ana Mailyan, Paolo Manghi, Matthias Scholz, Andrew Maltez Thomas, Mireia Valles-Colomer, George Weingart, Yancong Zhang, Moreno Zolfo, Curtis Huttenhower, Eric A Franzosa, Nicola Segata
Published 2021-05-01

Amplicon deep sequencing of kelch13 in Plasmodium falciparum isolates from Senegal

by Amy Gaye, Mouhamad Sy, Tolla Ndiaye, Katherine J. Siddle, Daniel J. Park, Awa B. Deme, Aminata Mbaye, Baba Dieye, Yaye Die Ndiaye, Daniel E. Neafsey, Angela Early, Timothy Farrell, Mamadou Samb Yade, Mamadou Alpha Diallo, Khadim Diongue, Amy Bei, Ibrahima Mbaye Ndiaye, Sarah K. Volkman, Aida Sadikh Badiane, Daouda Ndiaye
Published 2020-03-01

Exploiting the GTEx resources to decipher the mechanisms at GWAS loci

by Alvaro N. Barbeira, Rodrigo Bonazzola, Eric R. Gamazon, Yanyu Liang, YoSon Park, Sarah Kim-Hellmuth, Gao Wang, Zhuoxun Jiang, Dan Zhou, Farhad Hormozdiari, Boxiang Liu, Abhiram Rao, Andrew R. Hamel, Milton D. Pividori, François Aguet, GTEx GWAS Working Group, Lisa Bastarache, Daniel M. Jordan, Marie Verbanck, Ron Do, GTEx Consortium, Matthew Stephens, Kristin Ardlie, Mark McCarthy, Stephen B. Montgomery, Ayellet V. Segrè, Christopher D. Brown, Tuuli Lappalainen, Xiaoquan Wen, Hae Kyung Im
Published 2021-01-01

Advancing Genetic Selection and Behavioral Genomics of Working Dogs Through Collaborative Science

by Frances L. Chen, Frances L. Chen, Madeline Zimmermann, Jessica P. Hekman, Kathryn A. Lord, Kathryn A. Lord, Brittney Logan, Brittney Logan, Jane Russenberger, Jane Russenberger, Eldin A. Leighton, Eldin A. Leighton, Elinor K. Karlsson, Elinor K. Karlsson, Elinor K. Karlsson
Published 2021-09-01

A (fire)cloud-based DNA methylation data preprocessing and quality control platform

by Divy Kangeyan, Andrew Dunford, Sowmya Iyer, Chip Stewart, Megan Hanna, Gad Getz, Martin J. Aryee
Published 2019-03-01

Influence of HDL-cholesterol-elevating drugs on the in vitro activity of the HDL receptor SR-BI

by Thomas J.F. Nieland, Jared T. Shaw, Firoz A. Jaipuri, Zoltan Maliga, Jay L. Duffner, Angela N. Koehler, Monty Krieger
Published 2007-08-01

Methods for high-dimensional analysis of cells dissociated from cryopreserved synovial tissue

by Laura T. Donlin, Deepak A. Rao, Kevin Wei, Kamil Slowikowski, Mandy J. McGeachy, Jason D. Turner, Nida Meednu, Fumitaka Mizoguchi, Maria Gutierrez-Arcelus, David J. Lieb, Joshua Keegan, Kaylin Muskat, Joshua Hillman, Cristina Rozo, Edd Ricker, Thomas M. Eisenhaure, Shuqiang Li, Edward P. Browne, Adam Chicoine, Danielle Sutherby, Akiko Noma, Accelerating Medicines Partnership RA/SLE Network, Chad Nusbaum, Stephen Kelly, Alessandra B. Pernis, Lionel B. Ivashkiv, Susan M. Goodman, William H. Robinson, Paul J. Utz, James A. Lederer, Ellen M. Gravallese, Brendan F. Boyce, Nir Hacohen, Costantino Pitzalis, Peter K. Gregersen, Gary S. Firestein, Soumya Raychaudhuri, Larry W. Moreland, V. Michael Holers, Vivian P. Bykerk, Andrew Filer, David L. Boyle, Michael B. Brenner, Jennifer H. Anolik
Published 2018-07-01

Deep generative model embedding of single-cell RNA-Seq profiles on hyperspheres and hyperbolic spaces

by Jiarui Ding, Aviv Regev
Published 2021-05-01

Quantification of frequency-dependent genetic architectures in 25 UK Biobank traits reveals action of negative selection

by Armin P. Schoech, Daniel M. Jordan, Po-Ru Loh, Steven Gazal, Luke J. O’Connor, Daniel J. Balick, Pier F. Palamara, Hilary K. Finucane, Shamil R. Sunyaev, Alkes L. Price
Published 2019-02-01

Multi-scale chromatin state annotation using a hierarchical hidden Markov model

by Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello, Jianrong Wang, Manolis Kellis, Guo-Cheng Yuan
Published 2017-04-01

Technological considerations for genome-guided diagnosis and management of cancer

by Niall J. Lennon, Viktor A. Adalsteinsson, Stacey B. Gabriel
Published 2016-10-01

Structure-based protein function prediction using graph convolutional networks

by Vladimir Gligorijević, P. Douglas Renfrew, Tomasz Kosciolek, Julia Koehler Leman, Daniel Berenberg, Tommi Vatanen, Chris Chandler, Bryn C. Taylor, Ian M. Fisk, Hera Vlamakis, Ramnik J. Xavier, Rob Knight, Kyunghyun Cho, Richard Bonneau
Published 2021-05-01

Microscaled proteogenomic methods for precision oncology

by Shankha Satpathy, Eric J. Jaehnig, Karsten Krug, Beom-Jun Kim, Alexander B. Saltzman, Doug W. Chan, Kimberly R. Holloway, Meenakshi Anurag, Chen Huang, Purba Singh, Ari Gao, Noel Namai, Yongchao Dou, Bo Wen, Suhas V. Vasaikar, David Mutch, Mark A. Watson, Cynthia Ma, Foluso O. Ademuyiwa, Mothaffar F. Rimawi, Rachel Schiff, Jeremy Hoog, Samuel Jacobs, Anna Malovannaya, Terry Hyslop, Karl R. Clauser, D. R. Mani, Charles M. Perou, George Miles, Bing Zhang, Michael A. Gillette, Steven A. Carr, Matthew J. Ellis
Published 2020-01-01

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

by Kuan-lin Huang, Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles, D. R. Mani, Karl R. Clauser, Maki Tanioka, Jerry Usary, Shyam M. Kavuri, Ling Xie, Christopher Yoon, Jana W Qiao, John Wrobel, Matthew A. Wyczalkowski, Petra Erdmann-Gilmore, Jacqueline E. Snider, Jeremy Hoog, Purba Singh, Beifang Niu, Zhanfang Guo, Sam Qiancheng Sun, Souzan Sanati, Emily Kawaler, Xuya Wang, Adam Scott, Kai Ye, Michael D. McLellan, Michael C. Wendl, Anna Malovannaya, Jason M. Held, Michael A. Gillette, David Fenyö, Christopher R. Kinsinger, Mehdi Mesri, Henry Rodriguez, Sherri R. Davies, Charles M. Perou, Cynthia Ma, R. Reid Townsend, Xian Chen, Steven A. Carr, Matthew J. Ellis, Li Ding
Published 2017-03-01

Immunological Fingerprints of Controllers Developing Neutralizing HIV-1 Antibodies

by Enrique Martin-Gayo, Ce Gao, Hsiao Rong Chen, Zhengyu Ouyang, Dhohyung Kim, Kellie E. Kolb, Alex K. Shalek, Bruce D. Walker, Mathias Lichterfeld, Xu G. Yu
Published 2020-01-01

Identification of ADAR1 adenosine deaminase dependency in a subset of cancer cells

by Hugh S. Gannon, Tao Zou, Michael K. Kiessling, Galen F. Gao, Diana Cai, Peter S. Choi, Alexandru P. Ivan, Ilana Buchumenski, Ashton C. Berger, Jonathan T. Goldstein, Andrew D. Cherniack, Francisca Vazquez, Aviad Tsherniak, Erez Y. Levanon, William C. Hahn, Matthew Meyerson
Published 2018-12-01